OOIR: Observatory of International Research

Papers

(The H4-Index of Microbiome is 68. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-08-01 to 2025-08-01.)

Article	Citations
Phylogeny-guided microbiome OTU-specific association test (POST)	490
Correction: Sodium levels and grazing pressure shape natural communities of the intracellular pathogen Legionella	391
Correction: Gut microbiota-derived propionate mediates the neuroprotective effect of osteocalcin in a mouse model of Parkinson’s disease	390
Type 1 diabetes in pregnancy is associated with distinct changes in the composition and function of the gut microbiome	315
Should we modulate the neonatal microbiome and what should be the goal?	282
Microbial active functional modules derived from network analysis and metabolic interactions decipher the complex microbiome assembly in mangrove sediments	224
Cooperation between host immunity and the gut bacteria is essential for helminth-evoked suppression of colitis	208
Role of nasal microbiota in regulating host anti-influenza immunity in dogs	203
Colonization during a key developmental window reveals microbiota-dependent shifts in growth and immunity during undernutrition	190
Landscape of the gut archaeome in association with geography, ethnicity, urbanization, and diet in the Chinese population	188
Using strain-resolved analysis to identify contamination in metagenomics data	173
Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii	167
Effects of melatonin on rumen microorganisms and methane production in dairy cow: results from in vitro and in vivo studies	165
Integrated multi-omics analysis reveals the positive leverage of citrus flavonoids on hindgut microbiota and host homeostasis by modulating sphingolipid metabolism in mid-lactation dairy cows consumin	162
Engrafting gut bacteriophages have potential to modulate microbial metabolism in fecal microbiota transplantation	161
No microorganism was detected in amniotic fluid of healthy pregnancies from the second trimester to the delivery	159
Lower viral evolutionary pressure under stable versus fluctuating conditions in subzero Arctic brines	156
Methanolobus use unspecific methyltransferases to produce methane from dimethylsulphide in Baltic Sea sediments	147
Colonocyte-derived lactate promotes E. coli fitness in the context of inflammation-associated gut microbiota dysbiosis	146
Stool energy density is positively correlated to intestinal transit time and related to microbial enterotypes	143
LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis	141
Dissolved storage glycans shaped the community composition of abundant bacterioplankton clades during a North Sea spring phytoplankton bloom	135
A glimpse of the paleome in endolithic microbial communities	131
Oligofructose improves small intestinal lipid-sensing mechanisms via alterations to the small intestinal microbiota	126
Microbiota-indole 3-propionic acid-brain axis mediates abnormal synaptic pruning of hippocampal microglia and susceptibility to ASD in IUGR offspring	121

Bifidobacterial carbohydrate/nucleoside metabolism enhances oxidative phosphorylation in white adipose tissue to protect against diet-induced obesity	118
From dysbiosis to defense: harnessing the gut microbiome in HIV/SIV therapy	117
β-Elemonic acid mediated enrichment of Paenibacillus to help Salvia miltiorrhiza Bunge alleviate drought stress	116
Gut dysbiosis promotes prostate cancer progression and docetaxel resistance via activating NF-κB-IL6-STAT3 axis	116
Latent antibiotic resistance genes are abundant, diverse, and mobile in human, animal, and environmental microbiomes	112
H2 generated by fermentation in the human gut microbiome influences metabolism and competitive fitness of gut butyrate producers	108
Cover crop root exudates impact soil microbiome functional trajectories in agricultural soils	108
Blocked conversion of Lactobacillus johnsonii derived acetate to butyrate mediates copper-induced epithelial barrier damage in a pig model	103
Microbial community regulation and performance enhancement in gas biofilters by interrupting bacterial communication	99
Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigs	93
Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem	93
Bacterial quorum sensing orchestrates longitudinal interactions to shape microbiota assembly	93
Complementary insights into gut viral genomes: a comparative benchmark of short- and long-read metagenomes using diverse assemblers and binners	92
An improved workflow for accurate and robust healthcare environmental surveillance using metagenomics	91
Gastrointestinal jumbo phages possess independent synthesis and utilization systems of NAD+	90
Gut barrier-microbiota imbalances in early life lead to higher sensitivity to inflammation in a murine model of C-section delivery	89
Correction to: Disentangling environmental effects in microbial association networks	87
Microbial growth and volatile organic compound (VOC) emissions from carpet and drywall under elevated relative humidity conditions	84
Correction: Inulin diet uncovers complex diet-microbiota-immune cell interactions remodeling the gut epithelium	84
Disentangling environmental effects in microbial association networks	83
The core root microbiome of Spartina alterniflora is predominated by sulfur-oxidizing and sulfate-reducing bacteria in Georgia salt marshes, USA	82
Metaproteomics reveals diet-induced changes in gut microbiome function according to Crohn’s disease location	82
A synbiotic mixture of selected oligosaccharides and bifidobacteria assists murine gut microbiota restoration following antibiotic challenge	82
Reproducible and opposing gut microbiome signatures distinguish autoimmune diseases and cancers: a systematic review and meta-analysis	81
Metagenomics-resolved genomics provides novel insights into chitin turnover, metabolic specialization, and niche partitioning in the octocoral microbiome	81
High-resolution metagenomic reconstruction of the freshwater spring bloom	80
Gut-derived IL-13 contributes to growth via promoting hepatic IGF-1 production	79
Anthropogenic activities mediate stratification and stability of microbial communities in freshwater sediments	78
The effect of 3-nitrooxypropanol, a potent methane inhibitor, on ruminal microbial gene expression profiles in dairy cows	77
Integration of spatio-temporal variations of surface metabolomes and epibacterial communities highlights the importance of copper stress as a major factor shaping host-microbiota interactions within a	77
Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers	77
Metabolite-based dietary supplementation in human type 1 diabetes is associated with microbiota and immune modulation	76
Geography, not lifestyle, explains the population structure of free-living and host-associated deep-sea hydrothermal vent snail symbionts	76
Elucidating the role of the gut microbiota in the physiological effects of dietary fiber	76
VBCG: 20 validated bacterial core genes for phylogenomic analysis with high fidelity and resolution	75
Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture	74
Biogeographical survey of soil microbiomes across sub-Saharan Africa: structure, drivers, and predicted climate-driven changes	72
Eubacterium siraeum suppresses fat deposition via decreasing the tyrosine-mediated PI3K/AKT signaling pathway in high-fat diet-induced obesity	71
Determination of antibiotic resistance patterns and genotypes of Escherichia coli isolated from wild birds	71
Milk oligosaccharide-driven persistence of Bifidobacterium pseudocatenulatum modulates local and systemic microbial metabolites upon synbiotic treatment in conventionally colonized mice	71
Gut microbiota-derived ursodeoxycholic acid alleviates low birth weight-induced colonic inflammation by enhancing M2 macrophage polarization	70
Global analysis of the biosynthetic chemical space of marine prokaryotes	69
Gut metabolites predict Clostridioides difficile recurrence	68